Dynamic report for checking simulation design (4.5)

True mean Progression Free Time (PFT)

     Enzalutamide Abiraterone Carboplatin Cabazitaxel Docetaxel
----         7.11        7.11        5.40        7.11      5.40
---+         7.11        7.11        5.40        7.11     17.01
--+-         7.11        7.11        5.40        7.11      5.40
--++         7.11        7.11        5.40        7.11     17.01
-+--         7.11        7.11       17.01        7.11      5.40
-+-+         7.11        7.11       17.01        7.11     17.01
-++-         7.11        7.11       17.01        7.11      5.40
-+++         7.11        7.11       17.01        7.11     17.01
+---         7.11        7.11        5.40        7.11      5.40
+--+         7.11        7.11        5.40        7.11     17.01
+-+-         7.11        7.11        5.40        7.11      5.40
+-++         7.11        7.11        5.40        7.11     17.01
++--         7.11        7.11       17.01        7.11      5.40
++-+         7.11        7.11       17.01        7.11     17.01
+++-         7.11        7.11       17.01        7.11      5.40


Graduation output

$superiority
            Enzalutamide Abiraterone Carboplatin Cabazitaxel Docetaxel
all                    0           0           0           0         0
TP53- & AR-            0           0           0           0         0
TP53+                  0           0           0           0         0
DRD+                   0           0           1           0         0
TEfus+                 0           0           0           0         1

$inferiority
            Enzalutamide Abiraterone Carboplatin Cabazitaxel Docetaxel
all                    0           0           0           0         0
TP53- & AR-            0           0           0           0         0
TP53+                  0           0           0           0         0
DRD+                   0           0           0           0         0
TEfus+                 0           1           0           0         0


Final probability of superioriry by signatures and biomarkers subtypes

$p_sign
            Enzalutamide Abiraterone Carboplatin Cabazitaxel Docetaxel
all                 0.03        0.02        0.23        0.01      0.19
TP53- & AR-         0.38        0.12        0.98        0.35      0.36
TP53+               0.10        0.18        0.07        0.07      0.34
DRD+                0.11        0.09        0.80        0.06      0.08
TEfus+              0.01        0.00        0.04        0.00      0.48

$p_type
     Enzalutamide Abiraterone Carboplatin Cabazitaxel Docetaxel
----         0.06        0.29        0.08        0.42      0.13
---+         0.34        0.07        0.29        0.16      0.64
--+-         0.78        0.91        0.33        0.89      0.74
--++         0.20        0.14        0.09        0.16      0.82
-+--         0.78        0.71        1.00        0.75      0.32
-+-+         0.52        0.19        0.84        0.50      0.38
-++-         0.78        0.73        0.76        0.62      0.62
-+++         0.08        0.15        0.18        0.18      0.17
+---         0.50        0.29        0.20        0.34      0.13
+--+         0.26        0.18        0.20        0.31      0.77
+-+-         0.46        0.50        0.44        0.38      0.38
+-++         0.02        0.05        0.01        0.03      0.36
++--         0.08        0.09        0.44        0.06      0.07
++-+         0.15        0.15        0.20        0.10      0.40
+++-         0.42        0.48        0.38        0.32      0.32








     Control Enzalutamide Abiraterone Carboplatin Cabazitaxel Docetaxel
----      87           52          80          18          79        31
---+      17           20           8           4          12         6
--+-      43           38          42          22          32        32
--++      51           13           8          15          18         7
-+--      17           13          13          12          12         8
-+-+      22           10           2           4          10         0
-++-       4            1           0           1           5         3
-+++       3            1           2           1           3         0
+---      10            6           5           4          10         7
+--+      12           10           2           3          12         3
+-+-       4            2           2           0           2         1
+-++      21            5           2           4           5         3
++--       9           11           4           1           7         2
++-+       5            2           1           0           3         1
+++-       2            2           2           1           5         5
            Control Enzalutamide Abiraterone Carboplatin Cabazitaxel Docetaxel
all             307          186         173          90         215       109
TP53- & AR-     143           95         103          38         113        45
TP53+           128           62          58          44          70        51
DRD+             62           40          24          20          45        19
TEfus+          131           61          25          31          63        20





Number of events, PT, and rate by subtype (over time)




Number of events, PT, and rate by signature (over time)



Analysis of final simulated results

Sample of 10 rows:

      id          trt         trt2 line subtype delta month0    time_m all TP53- & AR- TP53+ DRD+ TEfus+
448  411  Carboplatin  Carboplatin    1    --+-     1     13 3.2212011   1           0     1    0      0
139  130 Enzalutamide Enzalutamide    1    ----     1      4 2.6587299   1           1     0    0      0
266  249 Enzalutamide Enzalutamide    1    --+-     1      8 5.4700406   1           0     1    0      0
769  692      Control Enzalutamide    1    ----     1     23 1.2719507   1           1     0    0      0
166  155      Control  Abiraterone    1    -+--     1      5 6.6289854   1           1     0    1      0
286  269    Docetaxel    Docetaxel    1    +-+-     1      8 0.6937390   1           0     1    0      0
588  531  Cabazitaxel  Cabazitaxel    1    ----     1     17 8.0275362   1           1     0    0      0
1079 966      Control    Docetaxel    1    +-++     0     32 4.0000000   1           0     1    0      1
503  452      Control Enzalutamide    1    ----     1     15 3.5181482   1           1     0    0      0
648  584 Enzalutamide Enzalutamide    1    -+--     1     19 0.8915835   1           1     0    1      0

Descriptives

Mean number of progressions and follow-up time:

$all
# A tibble: 6 x 4
  trt          progressions    PT  rate
  <fct>               <dbl> <dbl> <dbl>
1 Control               261 2213. 0.118
2 Enzalutamide          166 1101. 0.151
3 Abiraterone           157 1049. 0.150
4 Carboplatin            86  689. 0.125
5 Cabazitaxel           200 1395. 0.143
6 Docetaxel             104  785. 0.132

$`TP53- & AR-`
# A tibble: 6 x 4
  trt          progressions    PT   rate
  <fct>               <dbl> <dbl>  <dbl>
1 Control               129 1015. 0.127 
2 Enzalutamide           89  606. 0.147 
3 Abiraterone            96  638. 0.150 
4 Carboplatin            36  442. 0.0814
5 Cabazitaxel           101  760. 0.133 
6 Docetaxel              43  274. 0.157 

$`TP53+`
# A tibble: 6 x 4
  trt          progressions    PT  rate
  <fct>               <dbl> <dbl> <dbl>
1 Control               107  864. 0.124
2 Enzalutamide           55  332. 0.166
3 Abiraterone            50  355. 0.141
4 Carboplatin            43  186. 0.231
5 Cabazitaxel            69  432. 0.160
6 Docetaxel              47  373. 0.126

$`DRD+`
# A tibble: 6 x 4
  trt          progressions    PT   rate
  <fct>               <dbl> <dbl>  <dbl>
1 Control                50 465.  0.108 
2 Enzalutamide           39 278.  0.140 
3 Abiraterone            26 153.  0.170 
4 Carboplatin            17 381.  0.0446
5 Cabazitaxel            46 288.  0.160 
6 Docetaxel              21  93.4 0.225 

$`TEfus+`
# A tibble: 6 x 4
  trt          progressions     PT   rate
  <fct>               <dbl>  <dbl>  <dbl>
1 Control                99 1014.  0.0976
2 Enzalutamide           53  350.  0.152 
3 Abiraterone            27   94.1 0.287 
4 Carboplatin            30  194.  0.155 
5 Cabazitaxel            57  361.  0.158 
6 Docetaxel              20  332.  0.0602

Kaplan-Meier results:

$all
Call: survfit(formula = Surv(time_m, delta) ~ trt, data = d)

                   n events median 0.95LCL 0.95UCL
trt=Control      343    261   5.72    4.83    6.68
trt=Enzalutamide 203    166   4.46    3.72    5.50
trt=Abiraterone  193    157   4.46    3.78    5.49
trt=Carboplatin  100     86   4.36    3.68    6.36
trt=Cabazitaxel  247    200   5.02    4.24    5.74
trt=Docetaxel    126    104   4.82    3.61    7.99

$`TP53- & AR-`
Call: survfit(formula = Surv(time_m, delta) ~ trt, data = d)

                   n events median 0.95LCL 0.95UCL
trt=Control      161    129   5.22    4.19    7.00
trt=Enzalutamide 103     89   4.12    3.17    6.05
trt=Abiraterone  114     96   4.44    3.56    5.49
trt=Carboplatin   43     36   9.23    3.96   15.60
trt=Cabazitaxel  133    101   5.02    3.97    5.82
trt=Docetaxel     53     43   4.79    3.57    8.42

$`TP53+`
Call: survfit(formula = Surv(time_m, delta) ~ trt, data = d)

                   n events median 0.95LCL 0.95UCL
trt=Control      145    107   5.44    4.54    6.68
trt=Enzalutamide  70     55   4.63    3.66    6.27
trt=Abiraterone   66     50   5.57    3.69    7.88
trt=Carboplatin   47     43   3.77    2.84    5.49
trt=Cabazitaxel   79     69   4.91    3.74    6.59
trt=Docetaxel     57     47   6.00    3.34    9.18

$`DRD+`
Call: survfit(formula = Surv(time_m, delta) ~ trt, data = d)

                  n events median 0.95LCL 0.95UCL
trt=Control      69     50   5.62    4.01    9.72
trt=Enzalutamide 47     39   4.12    2.64    7.48
trt=Abiraterone  30     26   3.36    2.47    7.33
trt=Carboplatin  20     17  18.70   12.26   31.80
trt=Cabazitaxel  52     46   4.90    3.85    6.88
trt=Docetaxel    22     21   2.79    1.89    6.29

$`TEfus+`
Call: survfit(formula = Surv(time_m, delta) ~ trt, data = d)

                   n events median 0.95LCL 0.95UCL
trt=Control      145     99   7.00    5.62    9.36
trt=Enzalutamide  68     53   4.64    2.64    6.26
trt=Abiraterone   27     27   2.53    1.80    4.46
trt=Carboplatin   35     30   4.36    3.04    7.86
trt=Cabazitaxel   69     57   4.82    3.89    7.88
trt=Docetaxel     22     20  12.55   12.00   21.18